hi, anyNA() has been added to base R, but the definition is the opposite of genefilter::anyNA, which can be dangerous obviously. of course, there is also the issue of legacy code. > x <- c(1:3,NA) > anyis.na(x)) [1] TRUE > base::anyNA(x) [1] TRUE > genefilter::anyNA(x) [1] FALSE base man page says: "The generic function ?anyNA? implements ?anyis.na(x))? in a possibly faster way (especially for atomic vectors)." genefilter man page says: "?anyNA? evaluates to ?FALSE? if any of the elements of its argument are ?NA?." Here is a thread about adding anyNA() to base R https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=15239 > sessionInfo() R version 3.1.0 (2014-04-10) Platform: x86_64-apple-darwin12.5.0 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] genefilter_1.46.0 loaded via a namespace (and not attached): [1] annotate_1.42.0 AnnotationDbi_1.26.0 Biobase_2.24.0 [4] BiocGenerics_0.10.0 DBI_0.2-7 GenomeInfoDb_1.0.2 [7] IRanges_1.22.3 parallel_3.1.0 RCurl_1.95-4.1 [10] RSQLite_0.11.4 splines_3.1.0 stats4_3.1.0 [13] survival_2.37-7 XML_3.98-1.1 xtable_1.7-3

Hi Michael, I have just deprecated genefilter::anyNA and genefilter::allNA in the devel branch. (Version: 1.47.5 of genefilter) On 5/20/2014 6:52 AM, Michael Love wrote: > hi, > > anyNA() has been added to base R, but the definition is the opposite > of genefilter::anyNA, which can be dangerous obviously. of course, > there is also the issue of legacy code. > >> x <- c(1:3,NA) >> anyis.na(x)) > [1] TRUE >> base::anyNA(x) > [1] TRUE >> genefilter::anyNA(x) > [1] FALSE > > base man page says: > "The generic function ?anyNA? implements ?anyis.na(x))? in a possibly > faster way (especially for atomic vectors)." > > genefilter man page says: > "?anyNA? evaluates to ?FALSE? if any of the elements of its argument are ?NA?." > > Here is a thread about adding anyNA() to base R > https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=15239 > >> sessionInfo() > R version 3.1.0 (2014-04-10) > Platform: x86_64-apple-darwin12.5.0 (64-bit) > > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] genefilter_1.46.0 > > loaded via a namespace (and not attached): > [1] annotate_1.42.0 AnnotationDbi_1.26.0 Biobase_2.24.0 > [4] BiocGenerics_0.10.0 DBI_0.2-7 GenomeInfoDb_1.0.2 > [7] IRanges_1.22.3 parallel_3.1.0 RCurl_1.95-4.1 > [10] RSQLite_0.11.4 splines_3.1.0 stats4_3.1.0 > [13] survival_2.37-7 XML_3.98-1.1 xtable_1.7-3 > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Thanks and Regards, Sonali